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GPI-SOM specifications

Information


Unique identifier OMICS_07285
Name GPI-SOM
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Pascal Mäeser <>

Information


Unique identifier OMICS_07285
Name GPI-SOM
Interface Web user interface
Restrictions to use None
Programming languages C
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Pascal Mäeser <>

Publication for GPI-SOM

GPI-SOM in publications

 (52)
PMCID: 5915685
PMID: 29689067
DOI: 10.1371/journal.pone.0196303

[…] colletotrichum sequences (cut-off e-value, 1e-05)., secretomes were identified using a procedure similar to that previously reported [], in which signalp version 4.1 [], tmhmm server version 2.0 [], gpi-som [] and wolf psort [] were run sequentially. putative proteases were identified and classified by blastp querying against the merops database (http://merops.sanger.ac.uk/) with a cut-off […]

PMCID: 5858678
PMID: 29568220
DOI: 10.1177/1177932218763363

[…] in pblast implemented in tritrypdb. the signal peptide prediction was performed using signalp 4.1 server,, and the presence of glycosylphosphatidylinositol (gpi)-anchor regions was assessed using gpi-som 1.5, big-pi predictor, and predgpi-gpi. to predict regions with n- and o-linked glycosylation, we used the netnglyc 1.0 and netoglyc 4.0 servers, respectively. the search for domains […]

PMCID: 5854367
PMID: 29258832
DOI: 10.1016/j.ijpara.2017.09.007

[…] sporozoite using targetp (). trans-membrane domains (tmds) were predicted by tmhmm server v. 2.0 (), signal peptides (sp) by signalp 4.1 () and glycosylphosphatidylinositol (gpi)-anchor signal by gpi-som ()., we clustered all sporozoite protein coding sequences of t. parva with the complete predicted proteome of plasmodium falciparum into putative orthologous groups using the orthomcl […]

PMCID: 5676039
PMID: 29114024
DOI: 10.1128/mBio.01470-17

[…] introns (, ), were identified by visual inspection of the alignments and sequences of the genes. signal peptide and gpi anchor signal were identified using phobius (http://phobius.sbc.su.se/) () and gpi-som (http://gpi.unibe.ch/) (), respectively, with default settings. canonical potential sites nxs/t of nitrogen-linked glycosylation () were identified by visual inspection. conserved domains […]

PMCID: 5647017
PMID: 28791368
DOI: 10.3892/mmr.2017.7153

[…] database. a total of 6 protein sequences were matched and are presented in . these protein sequences were predicted as secretory proteins using tmhmm server.2.0 (), signalpv3.0 (), psortb () and gpi-som (). a total of 6 protein sequences contained a signal peptide, and 3 secretory proteins were predicted from the bioinformatics analysis (). using the aforementioned combined analyses, 6 […]


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GPI-SOM institution(s)
Institute of Cell Biology, University of Bern, Switzerland

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